Docstring:
Usage: qiime quality-control decontam-score-viz [OPTIONS]
Creates histogram based on the output of decontam identify
Inputs:
--i-decontam-scores ARTIFACTS... Collection[FeatureData[DecontamScore]]
Output from decontam identify to be visualized
[required]
--i-table ARTIFACTS... Collection[FeatureTable[Frequency]]
Raw OTU/ASV table that was used as input to
decontam-identify [required]
Parameters:
--p-threshold NUMBER Select threshold cutoff for decontam algorithm
scores [default: 0.1]
--p-weighted / --p-no-weighted
weight the decontam scores by their associated read
number [default: True]
--p-bin-size NUMBER Select bin size for the histogram [default: 0.02]
Outputs:
--o-visualization VISUALIZATION
[required]
Miscellaneous:
--output-dir PATH Output unspecified results to a directory
--verbose / --quiet Display verbose output to stdout and/or stderr
during execution of this action. Or silence output
if execution is successful (silence is golden).
--example-data PATH Write example data and exit.
--citations Show citations and exit.
--help Show this message and exit.
Import:
from qiime2.plugins.quality_control.visualizers import decontam_score_viz
Docstring:
Generate a histogram representation of the scores
Creates histogram based on the output of decontam identify
Parameters
----------
decontam_scores : Collection[FeatureData[DecontamScore]]
Output from decontam identify to be visualized
table : Collection[FeatureTable[Frequency]]
Raw OTU/ASV table that was used as input to decontam-identify
threshold : Float, optional
Select threshold cutoff for decontam algorithm scores
weighted : Bool, optional
weight the decontam scores by their associated read number
bin_size : Float, optional
Select bin size for the histogram
Returns
-------
visualization : Visualization
